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        If you use plots from MultiQC in a publication or presentation, please cite:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

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        About MultiQC

        This report was generated using MultiQC, version 1.0.dev0

        You can see a YouTube video describing how to use MultiQC reports here: https://youtu.be/qPbIlO_KWN0

        For more information about MultiQC, including other videos and extensive documentation, please visit http://multiqc.info

        You can report bugs, suggest improvements and find the source code for MultiQC on GitHub: https://github.com/ewels/MultiQC

        MultiQC is published in Bioinformatics:

        MultiQC: Summarize analysis results for multiple tools and samples in a single report
        Philip Ewels, Måns Magnusson, Sverker Lundin and Max Käller
        Bioinformatics (2016)
        doi: 10.1093/bioinformatics/btw354
        PMID: 27312411

        A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.

        Report generated on 2020-02-15, 03:02 based on data in: /beegfs/mk5636/logs/html/HCTCMBGXF/merged

        General Statistics

        Showing 37/37 rows and 3/5 columns.
        Sample Name% Dups% GCM Seqs
        HCTCMBGXF_n01_ChIP.zmm16-line12
        91.2%
        50%
        9.7
        HCTCMBGXF_n01_ChIP.zmm16-line12-input
        23.3%
        46%
        12.3
        HCTCMBGXF_n01_ChIP.zmm16-line14
        93.1%
        50%
        9.4
        HCTCMBGXF_n01_ChIP.zmm16-line14-input
        20.6%
        46%
        11.2
        HCTCMBGXF_n01_ChIP.zmm16-line15
        93.3%
        50%
        9.7
        HCTCMBGXF_n01_ChIP.zmm16-line15-input
        21.0%
        46%
        11.2
        HCTCMBGXF_n01_GE1-EV-RFP-Root
        58.5%
        47%
        10.5
        HCTCMBGXF_n01_GE10-SCL15-GFP-Root
        69.9%
        46%
        11.5
        HCTCMBGXF_n01_GE11-EV-RFP-Root
        67.8%
        47%
        13.2
        HCTCMBGXF_n01_GE12-AL7-RFP-Root
        67.5%
        47%
        13.9
        HCTCMBGXF_n01_GE13-XERIR0-GFP-Root
        68.0%
        46%
        12.7
        HCTCMBGXF_n01_GE14-bZIP63-RFP-Root
        71.4%
        48%
        10.2
        HCTCMBGXF_n01_GE15-SCL15-GFP-Root
        68.2%
        46%
        12.3
        HCTCMBGXF_n01_GE16-EV-RFP-Shoot
        66.5%
        46%
        10.8
        HCTCMBGXF_n01_GE17-AL7-RFP-Shoot
        75.5%
        46%
        10.6
        HCTCMBGXF_n01_GE18-bZIP63-RFP-Shoot
        58.5%
        46%
        9.5
        HCTCMBGXF_n01_GE19-SCL15-GFP-Shoot
        54.9%
        45%
        10.4
        HCTCMBGXF_n01_GE2-AL7-RFP-Root
        56.3%
        48%
        9.8
        HCTCMBGXF_n01_GE20-XERIR0-GFP-Shoot
        73.5%
        44%
        11.3
        HCTCMBGXF_n01_GE21-EV-RFP-Shoot
        78.5%
        45%
        12.9
        HCTCMBGXF_n01_GE22-AL7-RFP-Shoot
        73.6%
        45%
        12.0
        HCTCMBGXF_n01_GE23-bZIP63-RFP-Shoot
        64.9%
        46%
        14.9
        HCTCMBGXF_n01_GE24-SCL15-GFP-Shoot
        74.0%
        45%
        13.9
        HCTCMBGXF_n01_GE25-XERIR0-GFP-Shoot
        73.7%
        44%
        12.4
        HCTCMBGXF_n01_GE26-EV-RFP-Shoot
        58.9%
        46%
        13.2
        HCTCMBGXF_n01_GE27-AL7-RFP-Shoot
        59.8%
        46%
        12.0
        HCTCMBGXF_n01_GE28-bZIP63-RFP-Shoot
        60.2%
        46%
        13.9
        HCTCMBGXF_n01_GE29-SCL15-GFP-Shoot
        55.6%
        45%
        13.4
        HCTCMBGXF_n01_GE3-XERIR0-GFP-Root
        55.3%
        47%
        10.1
        HCTCMBGXF_n01_GE30-XERIR0-GFP-Shoot
        59.0%
        45%
        10.0
        HCTCMBGXF_n01_GE4-bZIP63-RFP-Root
        70.6%
        47%
        12.7
        HCTCMBGXF_n01_GE5-SCL15-GFP-Root
        59.9%
        46%
        12.2
        HCTCMBGXF_n01_GE6-EV-RFP-Root
        65.7%
        47%
        12.4
        HCTCMBGXF_n01_GE7-AL7-RFP-Root
        72.7%
        47%
        10.4
        HCTCMBGXF_n01_GE8-XERIR0-GFP-Root
        76.3%
        46%
        12.9
        HCTCMBGXF_n01_GE9-bZIP63-RFP-Root
        68.3%
        48%
        15.0
        HCTCMBGXF_n01_undetermined
        72.5%
        48%
        25.7

        Demultiplexing Report

        Demultiplexing Report
        Total Read Count: Total number of PF (Passing Filter) reads in this library.
        Portion: The proportion of reads that represent the individual library in the entire Library Pool.

        Showing 37/37 rows and 2/2 columns.
        Sample NameTotal Read CountPortion (%)
        undetermined_library
        25,733,935
        5.7
        GE1-EV-RFP-Root
        10,482,200
        2.3
        GE2-AL7-RFP-Root
        9,754,405
        2.2
        GE3-XERIR0-GFP-Root
        10,082,721
        2.2
        GE4-bZIP63-RFP-Root
        12,664,565
        2.8
        GE5-SCL15-GFP-Root
        12,163,393
        2.7
        GE6-EV-RFP-Root
        12,428,702
        2.8
        GE7-AL7-RFP-Root
        10,397,421
        2.3
        GE8-XERIR0-GFP-Root
        12,881,925
        2.9
        GE9-bZIP63-RFP-Root
        15,001,687
        3.3
        GE10-SCL15-GFP-Root
        11,484,658
        2.6
        GE11-EV-RFP-Root
        13,243,244
        2.9
        GE12-AL7-RFP-Root
        13,899,658
        3.1
        GE13-XERIR0-GFP-Root
        12,717,698
        2.8
        GE14-bZIP63-RFP-Root
        10,215,053
        2.3
        GE15-SCL15-GFP-Root
        12,322,997
        2.7
        GE16-EV-RFP-Shoot
        10,834,231
        2.4
        GE17-AL7-RFP-Shoot
        10,581,733
        2.4
        GE18-bZIP63-RFP-Shoot
        9,458,948
        2.1
        GE19-SCL15-GFP-Shoot
        10,356,297
        2.3
        GE20-XERIR0-GFP-Shoot
        11,252,611
        2.5
        GE21-EV-RFP-Shoot
        12,888,725
        2.9
        GE22-AL7-RFP-Shoot
        12,045,673
        2.7
        GE23-bZIP63-RFP-Shoot
        14,851,276
        3.3
        GE24-SCL15-GFP-Shoot
        13,930,502
        3.1
        GE25-XERIR0-GFP-Shoot
        12,446,184
        2.8
        GE26-EV-RFP-Shoot
        13,182,839
        2.9
        GE27-AL7-RFP-Shoot
        12,004,982
        2.7
        GE28-bZIP63-RFP-Shoot
        13,894,550
        3.1
        GE29-SCL15-GFP-Shoot
        13,424,598
        3.0
        GE30-XERIR0-GFP-Shoot
        10,049,987
        2.2
        ChIP.zmm16-line12
        9,743,613
        2.2
        ChIP.zmm16-line14
        9,375,782
        2.1
        ChIP.zmm16-line15
        9,679,128
        2.1
        ChIP.zmm16-line12-input
        12,297,321
        2.7
        ChIP.zmm16-line14-input
        11,217,146
        2.5
        ChIP.zmm16-line15-input
        11,199,379
        2.5

        Barcodes of Undetermined Reads

        Barcodes of Undetermined Reads
        We have determined the barcodes of your undetermined reads (reads containing a barcode that you did not encode in your metadata). Here are the top 20 barcodes belonging to the undetermined reads. The full list is available here.

        Showing 20/20 rows and 2/2 columns.
        Sample NameCountFrequency (%)
        GGGGGG
        16799865.0
        65.3
        GACGCC
        199868.0
        0.8
        CCCCGG
        120084.0
        0.5
        TCCCGC
        62341.0
        0.2
        GTGAAC
        57604.0
        0.2
        TCATTA
        51837.0
        0.2
        CCCTCA
        51490.0
        0.2
        GGGGGC
        48721.0
        0.2
        TACCGC
        45774.0
        0.2
        GCCGAC
        45124.0
        0.2
        CACGAA
        44196.0
        0.2
        CAACAA
        42953.0
        0.2
        TAATTC
        42822.0
        0.2
        ATGCGC
        41324.0
        0.2
        ATTACT
        41089.0
        0.2
        CACCTA
        39063.0
        0.1
        CACTAA
        37212.0
        0.1
        CCCGAT
        35895.0
        0.1
        GTGGGG
        35451.0
        0.1
        TATAAA
        35082.0
        0.1

        Run Statistics

        Run Statistics

        Showing 1/1 rows and 4/4 columns.
        Sample NameTotal # of Single-End ReadsTotal # PF Reads% Undetermined% PhiX Aligned
        4.0
        495,097,272
        450,189,767
        5.7
        3.1

        FastQC

        FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.

        Sequence Quality Histograms

        The mean quality value across each base position in the read. See the FastQC help.

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        Per Sequence Quality Scores

        The number of reads with average quality scores. Shows if a subset of reads has poor quality. See the FastQC help.

        loading..

        Per Base Sequence Content

        The proportion of each base position for which each of the four normal DNA bases has been called. See the FastQC help.

        Click a heatmap row to see a line plot for that dataset.

        rollover for sample name
        Position: -
        %T: -
        %C: -
        %A: -
        %G: -

        Per Sequence GC Content

        The average GC content of reads. Normal random library typically have a roughly normal distribution of GC content. See the FastQC help.

        loading..

        Per Base N Content

        The percentage of base calls at each position for which an N was called. See the FastQC help.

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        Sequence Length Distribution

        All samples have sequences of a single length (76bp).

        Sequence Duplication Levels

        The relative level of duplication found for every sequence. See the FastQC help.

        loading..

        Overrepresented sequences

        The total amount of overrepresented sequences found in each library. See the FastQC help for further information.

        loading..

        Adapter Content

        The cumulative percentage count of the proportion of your library which has seen each of the adapter sequences at each position. See the FastQC help. Only samples with ≥ 0.1% adapter contamination are shown.

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        MultiQC v1.0.dev0 - Written by Phil Ewels, available on GitHub.

        This report uses HighCharts, jQuery, jQuery UI, Bootstrap, FileSaver.js and clipboard.js.